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Author Details

Matthew J O'Meara
University of Michigan ann arbor
2013
35
20
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36738840A human liver organoid screening platform for DILI risk prediction.J Hepatol2023
37645941CryptoCEN: A Co-Expression Network for <i>Cryptococcus neoformans</i> reveals novel proteins involved in DNA damage repair.bioRxiv2023
37382550Imaging-Based Screening Identifies Modulators of the <i>eIF3</i> Translation Initiation Factor Complex in Candida albicans.Antimicrob Agents Chemother2023
37205709Candida albicans selection for human commensalism results in substantial within-host diversity without decreasing fitness for invasive disease.PLoS Biol2023
37131825Imaging-based screening identifies modulators of the <i>eIF3</i> translation initiation factor complex in <i>Candida albicans</i>.bioRxiv2023
36516892The life and times of endogenous opioid peptides: Updated understanding of synthesis, spatiotemporal dynamics, and the clinical impact in alcohol use disorder.Neuropharmacology2023
36016172In Vitro Evaluation and Mitigation of Niclosamide's Liabilities as a COVID-19 Treatment.Vaccines (Basel)2022
35671848Development of an automated screen for Kv7.2 potassium channels and discovery of a new agonist chemotype.Bioorg Med Chem Lett2022
35667008Correction to "The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design".J Chem Theory Comput2022
35860224In Vitro Evaluation and Mitigation of Niclosamide's Liabilities as a COVID-19 Treatment.bioRxiv2022
36102784Prioritizing Virtual Screening with Interpretable Interaction Fingerprints.J Chem Inf Model2022
33472984DeORFanizing Candida albicans Genes using Coexpression.mSphere2021
33909457Valproic acid-induced changes of 4D nuclear morphology in astrocyte cells.Mol Biol Cell2021
33791693Phospholipidosis is a shared mechanism underlying the in vitro antiviral activity of many repurposed drugs against SARS-CoV-2.bioRxiv2021
34880501Structures of the Ï¿<sub>2</sub> receptor enable docking for bioactive ligand discovery.Nature2021
34764269Leveraging machine learning essentiality predictions and chemogenomic interactions to identify antifungal targets.Nat Commun2021
34413211Morphological cell profiling of SARS-CoV-2 infection identifies drug repurposing candidates for COVID-19.Proc Natl Acad Sci U S A2021
34326236Drug-induced phospholipidosis confounds drug repurposing for SARS-CoV-2.Science2021
32353859A SARS-CoV-2 protein interaction map reveals targets for drug repurposing.Nature2020
33060197Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms.Science2020
32577649Morphological Cell Profiling of SARS-CoV-2 Infection Identifies Drug Repurposing Candidates for COVID-19.bioRxiv2020
32875119Reengineering biocatalysts: Computational redesign of chondroitinase ABC improves efficacy and stability.Sci Adv2020
30690102Local delivery of stabilized chondroitinase ABC degrades chondroitin sulfate proteoglycans in stroke-injured rat brains.J Control Release2019
31283755Global proteomic analyses define an environmentally contingent Hsp90 interactome and reveal chaperone-dependent regulation of stress granule proteins and the R2TP complex in a fungal pathogen.PLoS Biol2019
30728502Ultra-large library docking for discovering new chemotypes.Nature2019
29377793Prediction of enzymatic pathways by integrative pathway mapping.Elife2018
30131363High-Throughput Screening Identifies Genes Required for <i>Candida albicans</i> Induction of Macrophage Pyroptosis.mBio2018
28430426The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design.J Chem Theory Comput2017
27467773Ligand Similarity Complements Sequence, Physical Interaction, and Co-Expression for Gene Function Prediction.PLoS One2016
25866491Combined covalent-electrostatic model of hydrogen bonding improves structure prediction with Rosetta.J Chem Theory Comput2015
26335248A Web Resource for Standardized Benchmark Datasets, Metrics, and Rosetta Protocols for Macromolecular Modeling and Design.PLoS One2015
26421501The Recognition of Identical Ligands by Unrelated Proteins.ACS Chem Biol2015
24324006The Cryptococcus neoformans Rim101 transcription factor directly regulates genes required for adaptation to the host.Mol Cell Biol2014
23422428Scientific benchmarks for guiding macromolecular energy function improvement.Methods Enzymol2013
23823327Role of electrostatic repulsion in controlling pH-dependent conformational changes of viral fusion proteins.Structure2013
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Collaborators

Brian K Shoichet
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 9
Tanja Kortemme
University of California san francisco
Co-authored papers 7
Brian Kuhlman
Co-authored papers 5
Jiankun Lyu
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 5
Tia A Tummino
Quantitative Biosciences Institute (QBI), University of California San Francisco
Co-authored papers 5
Nevan J Krogan (CM4AI)
University of California San Francisco
Co-authored papers 4
Veronica V Rezelj
Quantitative Biosciences Institute (QBI) Coronavirus Research Group (QCRG)
Co-authored papers 4
Adolfo Garc??a-Sastre
Icahn School of Medicine at Mount Sinai
Co-authored papers 4
Thomas Vallet
Institut Pasteur, Center for the Viral Populations and Pathogenesis
Co-authored papers 4
Marco Vignuzzi
Quantitative Biosciences Institute (QBI) Coronavirus Research Group (QCRG)
Co-authored papers 4
Kevan M Shokat
University of California San Francisco
Co-authored papers 4
David Baker
University of Washington
Co-authored papers 4
Kris M White
Quantitative Biosciences Institute (QBI) Coronavirus Research Group (QCRG)
Co-authored papers 4
Andrej Sali (CM4AI)
University of California San Francisco
Co-authored papers 3
Olivier Schwartz
Institut Pasteur, Universite Paris Cite, CNRS UMR9
Co-authored papers 3
Andrew C Kruse
Blavatnik Institute, Harvard Medical School
Co-authored papers 3
Jeffrey J Gray
Johns Hopkins University
Co-authored papers 3
Bryan L Roth
UNC Chapel Hill School of Medicine
Co-authored papers 3
Frank DiMaio
University of Washington
Co-authored papers 3
Assaf Alon
Harvard Medical School
Co-authored papers 3
Leah E Cowen
University of Toronto
Co-authored papers 3
Hannes Braberg
University of California San Francisco
Co-authored papers 2
David A Agard
University of California, USA Quantitative Biosciences Institute (QBI) san francisco
Co-authored papers 2
Ying Shi
Shanghai Veterinary Research Institute, Chinese Academy of Agricultural Sciences
Co-authored papers 2
Tristan Frum
University of Michigan Medical School ann arbor
Co-authored papers 2
Audrey Fischer
Department of Preclinical Safety, Novartis Institutes for BioMedical Research
Co-authored papers 2
Jiewei Xu
Quantitative Biosciences Institute (QBI), University of California san francisco
Co-authored papers 2
Daniel J Saltzberg
University of California san francisco
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Danish Memon
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Release 1.2